tinydenseR is a landmark-based platform for single cell data analysis that identifies differentially abundant cell types and differentially expressed features, including subtle within-cluster state changes. Modeling samples as replicates, tinydenseR enhances analytic efficiency and reproducibility while preserving the richness of single cell data

Deep survival analysis made easy

Applied modelling in drug development: flexible Bayesian regression modelling in Stan via brms

This pipeline is designed for AAV integration site analysis using Target Enrichment Sequencing (TES) coupled with PacBio long-read sequencing. It enables the detection of integration site breakpoints and provides information on the structure of the integrated AAV vector genome to support the safety assessment of AAV-based gene therapies.

The fully R based tool peakCombiner is a user-friendly, transparent, modular and customizable package with the purpose to create a consensus peak file from genomic input regions. The aim is to allow even novice R users to create good quality combined peak sets to be used as the starting point for most downstream differential analyses.

Exploratory Graphics for PKPD data

This repository contains code examples for several methods in a Causal Inference in RCTs short course.

Parse a simplified JSONPath-like syntax

Monitoring overall survival in pivotal trials for indolent cancer

R package for supporting exploratory graphics at http://opensource.nibr.com/xgx